Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106106
Name   oriT_5|p3 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain 5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP031362 (90253..90403 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_5|p3
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4092 GenBank   WP_001326173
Name   mobH_DXF95_RS24460_5|p3 insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP

ID   4105 GenBank   WP_000178857
Name   traD_DXF95_RS24465_5|p3 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.



ID   4106 GenBank   WP_020833628
Name   traC_DXF95_RS24540_5|p3 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92590.83 Da        Isoelectric Point: 5.9216

>WP_020833628.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
GPTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(21-255)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 88337..113480

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DXF95_RS24450 (DXF95_25035) 84368..84601 - 234 WP_001191890 hypothetical protein -
DXF95_RS24455 (DXF95_25040) 84583..85200 - 618 WP_001249395 hypothetical protein -
DXF95_RS24460 (DXF95_25045) 85368..88340 + 2973 WP_001326173 MobH family relaxase -
DXF95_RS24465 (DXF95_25050) 88337..90202 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
DXF95_RS24470 (DXF95_25055) 90252..90797 + 546 WP_000228720 hypothetical protein -
DXF95_RS24475 (DXF95_25060) 90754..91383 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
DXF95_RS24480 (DXF95_25065) 91393..91839 + 447 WP_000122507 hypothetical protein -
DXF95_RS24485 (DXF95_25070) 91849..92226 + 378 WP_000869297 hypothetical protein -
DXF95_RS24490 (DXF95_25075) 92226..92888 + 663 WP_001231464 hypothetical protein -
DXF95_RS24495 (DXF95_25080) 93224..93589 + 366 WP_001052531 hypothetical protein -
DXF95_RS24500 (DXF95_25085) 93734..94015 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
DXF95_RS24505 (DXF95_25090) 94012..94638 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
DXF95_RS24510 (DXF95_25095) 94622..95539 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
DXF95_RS24515 (DXF95_25100) 95539..96852 + 1314 WP_024131605 TraB/VirB10 family protein traB
DXF95_RS24520 (DXF95_25105) 96849..97427 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
DXF95_RS24525 (DXF95_25110) 97431..97823 + 393 WP_000479535 TraA family conjugative transfer protein -
DXF95_RS24530 (DXF95_25115) 98024..103510 + 5487 WP_000606835 Ig-like domain-containing protein -
DXF95_RS24535 (DXF95_25120) 103659..104366 + 708 WP_001259346 DsbC family protein -
DXF95_RS24540 (DXF95_25125) 104363..106810 + 2448 WP_020833628 type IV secretion system protein TraC virb4
DXF95_RS24545 (DXF95_25130) 106825..107142 + 318 WP_000351984 hypothetical protein -
DXF95_RS24550 (DXF95_25135) 107139..107669 + 531 WP_001010740 S26 family signal peptidase -
DXF95_RS24555 (DXF95_25140) 107632..108897 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
DXF95_RS24560 (DXF95_25145) 108894..109565 + 672 WP_000575345 EAL domain-containing protein -
DXF95_RS24565 (DXF95_25150) 109565..110569 + 1005 WP_005507569 TraU family protein traU
DXF95_RS24570 (DXF95_25155) 110685..113480 + 2796 WP_020833629 conjugal transfer mating pair stabilization protein TraN traN
DXF95_RS24575 (DXF95_25160) 113519..114379 - 861 WP_020833630 hypothetical protein -
DXF95_RS24585 (DXF95_25170) 114779..115420 - 642 WP_000134999 MBL fold metallo-hydrolase -
DXF95_RS24590 (DXF95_25175) 115660..116922 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
DXF95_RS24595 (DXF95_25180) 117118..117434 - 317 Protein_143 IS6-like element IS26 family transposase -
DXF95_RS24600 (DXF95_25185) 117486..118480 - 995 Protein_144 IS4 family transposase -

Host bacterium

ID   6543 GenBank   NZ_CP031362
Plasmid name   5|p3 Incompatibility group   IncA/C2
Plasmid size   190543 bp Coordinate of oriT [Strand]   90253..90403 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain 5

Cargo genes

Drug resistance gene   -
Virulence gene   fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   merR, merT, merP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -